Alternatives and similar repositories for TEffectR

Users that are interested in TEffectR are comparing it to the libraries listed below

• rcastelo / atena
  Analysis of transposable elements
  ☆12Updated last week
• khuang28jhu / bs3
  BS-Seeker3: An Ultra-fast, Versatile Pipeline for Mapping Bisulfite-treated Reads.
  ☆27Updated 6 years ago
• francois-a / fastqtl
  Enhanced version of the FastQTL QTL mapper
  ☆67Updated 2 years ago
• jianhong / trackViewer
  A bioconductor package with minimalist design for drawing elegant tracks or lollipop plot
  ☆72Updated last month
• FelixKrueger / SNPsplit
  Allele-specific alignment sorting
  ☆58Updated 2 years ago
• akiomiyao / tef
  Transposable Element Finder - Detection of active transposable elements from NGS data
  ☆9Updated last week
• a-slide / NanoCount
  EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2
  ☆62Updated 10 months ago
• PulverCyril / craTEs
  Estimate the cis-regulatory activity of transposable element (TEs) subfamilies
  ☆10Updated last year
• AndreasHeger / gat
  Genomic Association Tester
  ☆31Updated 2 years ago
• eQTL-Catalogue / qtlmap
  Portable eQTL analysis and statistical fine mapping workflow used by the eQTL Catalogue
  ☆50Updated 3 weeks ago
• mhammell-laboratory / TElocal
  A package for quantifying transposable elements at a locus level for RNAseq datasets.
  ☆28Updated 6 months ago
• harbourlab / SparK
  Publication quality NGS track plotting
  ☆114Updated 3 years ago
• crazyhottommy / pyflow-RNAseq
  RNAseq pipeline based on snakemake
  ☆26Updated 2 years ago
• nf-core / isoseq
  Genome annotation with PacBio Iso-Seq. Takes raw subreads as input, generate Full Length Non Chemiric (FLNC) sequences and produce a bed …
  ☆45Updated last month
• BioinfoUNIBA / REDItools
  REDItools are python scripts to investigate RNA editing at genomic scale.
  ☆68Updated 3 weeks ago
• hellbelly / BS-Snper
  ☆38Updated 4 years ago
• smithlabcode / methpipe
  A pipeline for analyzing DNA methylation data from bisulfite sequencing.
  ☆70Updated 2 years ago
• kvittingseerup / IsoformSwitchAnalyzeR
  An R package to Identify, Annoatate and Visialize Isoform Switches with Functional Consequences (from RNA-seq data)
  ☆116Updated 6 months ago
• ivanek / Gviz
  This is the Gviz development repository. Gviz plots data and annotation information along genomic coordinates.
  ☆86Updated 6 months ago
• hyunhwan-jeong / SalmonTE
  SalmonTE is an ultra-Fast and Scalable Quantification Pipeline of Transpose Element (TE) Abundances
  ☆89Updated 2 years ago
• snystrom / memes
  An R interface to the MEME Suite
  ☆52Updated last month
• deLaatLab / pipe4C
  4C-seq processing pipeline
  ☆24Updated 4 months ago
• amarinderthind / RNA-seq-tutorial-for-gene-differential-expression-analysis
  This RNAseq data analysis tutorial is created for educational purpose
  ☆33Updated this week
• smithlabcode / dnmtools
  Tools for analyzing DNA methylation data
  ☆43Updated 2 weeks ago
• hbctraining / Intro-to-rnaseq-hpc-salmon
  ☆50Updated 4 years ago
• YaoLab-Bioinfo / shinyChromosome
  an R/Shiny application for interactive creation of non-circular plots of whole genomes
  ☆45Updated 2 months ago
• ISUgenomics / common_analyses
  Repository of common bioinformatics scripts
  ☆39Updated 3 years ago
• nerettilab / RepEnrich2
  RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.
  ☆39Updated 3 years ago
• williamritchie / IRFinder
  Detecting intron retention from RNA-Seq experiments
  ☆55Updated last year
• dariober / bioinformatics-cafe
  Unsorted scripts for bioinformatics
  ☆61Updated 4 years ago